Contacts of the helix formed by residues 150 - 172 (chain A) in PDB entry 3M0V
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with ASN 150 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A HIS* 3.8 13.3 + - - -
148A HIS* 2.8 22.9 + - + +
149A THR* 1.3 76.8 + - - +
151A ALA* 1.3 69.7 + - - +
152A ALA* 3.4 16.2 + - - +
153A THR* 2.9 42.8 + - - +
154A ARG* 3.2 15.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 151 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A THR 3.5 4.8 + - - -
150A ASN* 1.3 74.2 + - - +
152A ALA* 1.3 58.0 + - - +
154A ARG* 3.2 31.3 + - - +
155A ALA* 3.0 26.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 152 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A HIS* 3.3 28.4 - - + +
150A ASN* 3.2 12.1 + - - +
151A ALA* 1.3 78.0 - - - +
153A THR* 1.3 57.5 + - - +
155A ALA* 3.4 8.0 + - - +
156A GLN* 3.0 27.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 153 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A HIS* 3.5 21.0 + - + +
140A SER 3.9 7.4 + - - +
141A TYR* 3.9 26.3 - - + -
144A GLY 4.0 0.2 - - - +
145A SER 4.2 0.9 - - - +
148A HIS* 3.7 34.8 + - + -
150A ASN* 2.9 32.8 + - - +
152A ALA* 1.3 74.8 - - - +
154A ARG* 1.3 65.1 + - - +
156A GLN* 3.3 4.0 + - - +
157A ALA* 3.0 21.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 154 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A SER 3.5 18.4 - - - +
146A LEU* 3.3 21.8 - - - +
148A HIS 3.0 34.5 + - - +
149A THR 3.3 17.6 + - - -
150A ASN 3.5 2.5 - - - +
151A ALA* 3.2 33.0 + - - +
153A THR* 1.3 76.8 - - - +
155A ALA* 1.3 57.9 + - - +
157A ALA* 3.2 3.8 + - - +
158A VAL* 2.9 34.4 + - + +
198A ARG* 3.5 33.7 + - - +
201A SER* 5.7 4.6 + - - -
202A ALA* 4.8 6.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 155 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A ALA 3.0 13.2 + - - +
152A ALA* 3.6 11.9 - - - +
154A ARG* 1.3 77.0 - - - +
156A GLN* 1.3 56.9 + - - +
158A VAL* 3.2 9.3 + - - +
159A GLU* 3.0 29.6 + - - +
205A GLU* 5.7 3.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 156 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A GLN* 3.0 19.4 - - - +
138A ALA* 3.4 10.9 + - - +
139A HIS* 2.8 55.8 + - + +
141A TYR* 3.0 24.9 + - - +
152A ALA 3.0 14.1 + - - +
153A THR* 3.3 7.6 + - - +
155A ALA* 1.3 76.0 - - - +
157A ALA* 1.3 61.5 + - - +
159A GLU* 3.5 7.0 + - - +
160A HIS* 3.1 21.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 157 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A THR* 3.9 12.6 - - + -
141A TYR* 3.4 24.1 + - + +
145A SER 4.0 11.4 - - - -
146A LEU* 3.6 17.5 - - + -
153A THR 3.0 13.0 + - - +
154A ARG 3.6 7.6 - - - +
156A GLN* 1.3 74.2 - - - +
158A VAL* 1.3 64.9 + - - +
160A HIS* 3.3 3.2 + - - +
161A ASN* 2.9 31.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 158 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A LEU* 4.2 4.0 - - + -
154A ARG* 2.9 20.6 + - + +
155A ALA* 3.2 11.2 + - - +
157A ALA* 1.3 77.4 - - - +
159A GLU* 1.3 63.1 + - - +
161A ASN* 3.1 5.2 + - - +
162A LEU* 3.0 36.6 + - + +
202A ALA* 3.7 34.5 - - + +
205A GLU* 3.9 35.7 - - + +
206A ILE* 4.1 15.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 159 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155A ALA 3.0 15.5 + - - +
156A GLN* 3.8 8.1 - - - +
158A VAL* 1.3 78.1 - - - +
160A HIS* 1.3 62.9 + - - +
162A LEU* 3.3 24.3 + - - +
163A GLU* 3.0 27.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 160 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A ILE* 3.4 25.8 + - + +
103A PRO* 4.0 5.9 - - + +
106A LYS* 5.3 7.4 - - - -
128A SER* 3.6 13.4 - - - -
129A ASN 2.8 42.7 + - - -
130A THR* 3.6 17.1 - - + +
141A TYR* 4.6 3.6 - + - +
156A GLN 3.1 14.7 + - - +
157A ALA* 3.5 10.8 - - - +
158A VAL 3.2 0.4 - - - -
159A GLU* 1.3 77.2 - - - +
161A ASN* 1.3 63.4 + - - +
163A GLU* 3.1 15.4 + - - +
164A CYS* 3.1 28.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 161 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A SER* 2.7 33.8 + - - -
130A THR* 4.4 9.3 + - - +
146A LEU* 3.9 13.1 - - - +
157A ALA 2.9 22.6 + - - -
158A VAL 3.1 4.8 + - - +
160A HIS* 1.3 81.5 - - - +
162A LEU* 1.3 61.6 + - - +
164A CYS* 3.1 18.3 + - - +
165A ILE* 3.1 18.2 + - - +
176A LEU* 3.6 17.3 - - + +
178A VAL* 3.6 6.5 - - - +
180A ILE* 6.1 0.2 - - - +
206A ILE* 3.4 35.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 162 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A VAL* 3.0 30.3 + - + +
159A GLU* 3.6 29.6 - - - +
161A ASN* 1.3 78.2 - - - +
163A GLU* 1.3 62.7 + - - +
165A ILE* 3.1 14.2 + - + +
166A GLU* 3.0 26.9 + - + +
205A GLU 4.4 4.0 - - - +
206A ILE* 4.1 21.1 - - - +
209A GLY* 4.0 26.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 163 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A ILE* 4.5 2.4 - - + +
106A LYS* 2.8 42.6 + - - +
159A GLU* 3.0 18.9 + - - +
160A HIS* 3.1 16.3 + - - +
162A LEU* 1.3 74.1 - - - +
164A CYS* 1.3 60.5 + - - +
166A GLU* 3.1 10.8 + - + +
167A ILE* 2.9 40.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 164 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A ILE* 3.7 32.5 - - + -
126A MET* 3.6 17.7 - - + +
127A ASN 4.3 0.4 - - - -
128A SER* 3.7 26.2 - - - -
160A HIS* 3.1 26.0 + - - -
161A ASN 3.1 9.4 + - - +
163A GLU* 1.3 76.9 - - - +
165A ILE* 1.3 57.1 + - - +
167A ILE* 3.4 9.1 + - - +
168A GLY 2.9 23.2 + - - -
176A LEU* 4.0 16.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 165 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A ASN 3.1 13.6 + - - +
162A LEU* 3.1 16.2 + - + +
164A CYS* 1.3 78.1 - - - +
166A GLU* 1.3 58.5 + - - +
168A GLY 3.3 0.3 + - - -
169A LYS* 2.9 40.2 + - + +
176A LEU* 3.9 18.8 - - + -
206A ILE* 4.1 15.7 - - + +
209A GLY 3.7 24.0 - - - +
210A LEU* 3.7 24.0 - - + -
211A PRO* 4.0 15.7 - - + -
214A TRP* 3.6 23.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 166 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A PRO* 5.6 0.2 - - - +
162A LEU* 3.0 19.3 + - + +
163A GLU* 3.1 12.3 + - + +
165A ILE* 1.3 81.1 - - - +
167A ILE* 1.3 62.6 + - + +
169A LYS* 2.8 38.8 + - - +
170A ALA* 3.4 20.8 + - - +
209A GLY 5.4 1.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 167 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A LEU* 5.4 0.4 - - + -
102A ILE* 4.0 35.9 - - + -
106A LYS* 4.6 12.1 - - + -
107A ALA 5.4 3.6 - - - +
109A PRO* 4.7 21.3 - - + -
112A LEU* 4.7 16.6 - - + -
126A MET* 3.7 17.0 - - + -
163A GLU* 2.9 37.0 + - + +
164A CYS 3.7 4.7 - - - +
165A ILE 3.3 0.2 - - - -
166A GLU* 1.3 75.9 - - + +
168A GLY* 1.3 63.4 + - - +
170A ALA* 3.2 16.1 + - - +
171A ILE* 3.2 16.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 168 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A MET* 3.6 30.7 - - - -
164A CYS 2.9 11.9 + - - -
165A ILE 3.7 2.5 - - - -
167A ILE* 1.3 75.5 - - - +
169A LYS* 1.3 64.5 + - - +
171A ILE* 3.2 2.5 + - - +
172A GLY 3.0 6.4 + - - -
173A SER* 2.9 28.5 + - - -
214A TRP* 3.7 8.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 169 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A ILE* 2.9 22.9 + - + +
166A GLU* 2.8 43.8 + - - +
168A GLY* 1.3 77.1 - - - +
170A ALA* 1.3 61.5 + - - +
171A ILE 3.5 0.3 + - - -
172A GLY* 3.8 6.4 + - - -
173A SER 4.5 2.2 - - - -
209A GLY 5.4 1.8 + - - -
211A PRO* 3.4 28.8 - - + +
214A TRP* 3.5 19.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 170 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A PRO* 3.6 26.4 - - + +
110A LYS* 6.1 1.1 - - + +
113A LYS* 4.6 12.1 - - - +
166A GLU 3.4 9.5 + - - +
167A ILE 3.2 9.6 + - - +
168A GLY 3.1 0.6 - - - -
169A LYS* 1.3 81.5 - - - +
171A ILE* 1.3 59.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 171 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A LEU* 3.5 30.5 - - + -
109A PRO* 3.6 32.8 - - + +
112A LEU* 4.2 13.2 - - + -
113A LYS* 3.5 23.6 - - + +
123A PHE* 3.4 45.3 + - + -
126A MET* 3.8 18.6 - - + -
167A ILE* 3.2 14.1 + - + +
168A GLY* 3.5 10.5 - - - +
170A ALA* 1.3 79.0 - - - +
172A GLY* 1.3 59.8 + - - +
173A SER 4.0 3.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 172 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113A LYS* 5.5 2.0 - - - -
123A PHE* 4.1 10.0 - - - +
168A GLY 3.0 3.6 + - - -
169A LYS 3.8 5.6 + - - -
170A ALA 3.6 2.4 + - - -
171A ILE* 1.3 77.8 - - - +
173A SER* 1.3 67.7 + - - +
174A LYS* 3.8 15.9 + - - +
----------------------------------------------------------
Back to top of page
A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il